Human Gene HOXB13 (ENST00000290295.8_7) from GENCODE V47lift37
  Description: homeobox B13 (from RefSeq NM_006361.6)
Gencode Transcript: ENST00000290295.8_7
Gencode Gene: ENSG00000159184.8_8
Transcript (Including UTRs)
   Position: hg19 chr17:46,802,125-46,806,112 Size: 3,988 Total Exon Count: 2 Strand: -
Coding Region
   Position: hg19 chr17:46,804,152-46,805,955 Size: 1,804 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:46,802,125-46,806,112)mRNA (may differ from genome)Protein (284 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: HXB13_HUMAN
DESCRIPTION: RecName: Full=Homeobox protein Hox-B13;
FUNCTION: Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.
SUBCELLULAR LOCATION: Nucleus.
SIMILARITY: Belongs to the Abd-B homeobox family.
SIMILARITY: Contains 1 homeobox DNA-binding domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: HOXB13
Diseases sorted by gene-association score: prostate cancer* (101), prostate cancer susceptibility* (94), spinal cord ependymoma (11), spinal cord glioma (11), spinal cancer (7), myxopapillary ependymoma (6), male reproductive organ cancer (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 54.87 RPKM in Prostate
Total median expression: 62.93 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -62.20157-0.396 Picture PostScript Text
3' UTR -779.102027-0.384 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR017970 - Homeobox_CS
IPR001356 - Homeodomain
IPR009057 - Homeodomain-like
IPR022067 - HoxA13_N

Pfam Domains:
PF00046 - Homeodomain
PF12284 - Hox protein A13 N terminal

SCOP Domains:
46689 - Homeodomain-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2CRA - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q92826
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001227 transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding
GO:0003677 DNA binding
GO:0008327 methyl-CpG binding
GO:0043565 sequence-specific DNA binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0001525 angiogenesis
GO:0002009 morphogenesis of an epithelium
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0007275 multicellular organism development
GO:0008544 epidermis development
GO:0009611 response to wounding
GO:0030850 prostate gland development
GO:0033574 response to testosterone
GO:0040008 regulation of growth
GO:0060527 prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis
GO:0060743 epithelial cell maturation involved in prostate gland development

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005667 transcription factor complex


-  Descriptions from all associated GenBank mRNAs
  AY937237 - Homo sapiens PSGD protein (HOXB13) mRNA, complete cds, alternatively spliced.
BC070233 - Homo sapiens homeobox B13, mRNA (cDNA clone MGC:88215 IMAGE:6668163), complete cds.
BC007092 - Homo sapiens homeobox B13, mRNA (cDNA clone MGC:14711 IMAGE:4250486), complete cds.
U81599 - Homo sapiens homeodomain protein HOXB13 mRNA, complete cds.
JD237978 - Sequence 219002 from Patent EP1572962.
JD118825 - Sequence 99849 from Patent EP1572962.
AK225234 - Homo sapiens mRNA for homeo box B13 variant, clone: COL05517.
JD272323 - Sequence 253347 from Patent EP1572962.
U57052 - Human Hoxb-13 mRNA, complete cds.
JD480307 - Sequence 461331 from Patent EP1572962.
JD318974 - Sequence 299998 from Patent EP1572962.
JD521718 - Sequence 502742 from Patent EP1572962.
KF613154 - Homo sapiens homeobox protein Hox-B13 variant (HOXB13) mRNA, complete cds.
AK313266 - Homo sapiens cDNA, FLJ93776, highly similar to Homo sapiens homeo box B13 (HOXB13), mRNA.
BT007410 - Homo sapiens homeo box B13 mRNA, complete cds.
KJ893057 - Synthetic construct Homo sapiens clone ccsbBroadEn_02451 HOXB13 gene, encodes complete protein.
DQ893517 - Synthetic construct clone IMAGE:100006147; FLH194859.01X; RZPDo839F1080D homeobox B13 (HOXB13) gene, encodes complete protein.
DQ896496 - Synthetic construct Homo sapiens clone IMAGE:100010956; FLH194855.01L; RZPDo839F1070D homeobox B13 (HOXB13) gene, encodes complete protein.
AB464574 - Synthetic construct DNA, clone: pF1KB8934, Homo sapiens HOXB13 gene for homeobox B13, without stop codon, in Flexi system.
JD389356 - Sequence 370380 from Patent EP1572962.
JD253301 - Sequence 234325 from Patent EP1572962.
JD141166 - Sequence 122190 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B2R878, ENST00000290295.1, ENST00000290295.2, ENST00000290295.3, ENST00000290295.4, ENST00000290295.5, ENST00000290295.6, ENST00000290295.7, HXB13_HUMAN, NM_006361, Q92826, Q96QM4, Q99810, uc317kuj.1, uc317kuj.2
UCSC ID: ENST00000290295.8_7
RefSeq Accession: NM_006361.6
Protein: Q92826 (aka HXB13_HUMAN or HXBD_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.